Article
Biotechnology & Applied Microbiology
Irene Otero-Muras, Pablo Carbonell
Summary: Metabolic engineering involves optimizing processes from single-cell to fermentation to increase production of valuable chemicals. A systems approach has accelerated scaling from rapid prototyping to industrial production, with automated DNA assembly reducing time from conception to production. The success of metabolic engineering often relies on retrobiosynthetic protocols and dynamic regulation strategies assembled as genetic circuits in host strains.
METABOLIC ENGINEERING
(2021)
Review
Biotechnology & Applied Microbiology
Dongdong Zhao, Xinna Zhu, Hang Zhou, Naxin Sun, Ting Wang, Changhao Bi, Xueli Zhang
Summary: Effective metabolic pathways are crucial for efficient cell factories, and utilizing CRISPR technology in pathway engineering can enhance efficiency, reduce costs, and simplify target customization. This technology has been proven to be robust and effective in various organisms.
METABOLIC ENGINEERING
(2021)
Article
Agriculture, Multidisciplinary
Xiao Kong, Yaokang Wu, Wenwen Yu, Yanfeng Liu, Jianghua Li, Guocheng Du, Xueqin Lv, Long Liu
Summary: In this study, efficient biosynthesis of limonene in Saccharomyces cerevisiae was achieved through metabolic engineering strategies. The metabolic flow was directed towards limonene synthesis, and the titer reached 2.63 g/L, the highest reported in S. cerevisiae.
JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY
(2023)
Article
Biotechnology & Applied Microbiology
Zhidong Zhang, Qi Guo, Jinyi Qian, Chao Ye, He Huang
Summary: A genome-scale metabolic model of Streptomyces radiopugnans was constructed and used to predict and optimize the synthesis pathway of geosmin, an important odor compound. The model also identified key targets for metabolic engineering modification.
FRONTIERS IN BIOENGINEERING AND BIOTECHNOLOGY
(2023)
Article
Biotechnology & Applied Microbiology
Ana P. Teixeira, Pascal Stucheli, Simon Auslander, David Auslander, Pascal Schonenberger, Samuel Hurlemann, Martin Fussenegger
Summary: The researchers have developed an antibiotic-free selection system for generating stable transgenic cell lines, which utilizes cellobiose as the primary energy source. By combining this system with a PiggyBac transposase-based integration strategy, they were able to efficiently generate stable transgenic cell lines that expressed high levels of cargo proteins. This strategy was successfully validated by integrating sequences encoding two biopharmaceutical proteins, erythropoietin and the monoclonal antibody rituximab, and confirmed their efficient production in both cellobiose- and glucose-containing medium.
METABOLIC ENGINEERING
(2022)
Article
Biotechnology & Applied Microbiology
Sean F. Sullivan, Anuj Shetty, Tharun Bharadwaj, Naveen Krishna, Vikas D. Trivedi, Venkatesh Endalur Gopinarayanan, Todd C. Chappell, Daniel M. Sellers, R. Pravin Kumar, Nikhil U. Nair
Summary: Engineering the utilization of non-native substrates in industrial microbes provides a way to use renewable sources for bioprocesses. Previous research has shown that activating the GAL regulon in Saccharomyces cerevisiae during growth on the non-native substrate xylose enhances gene expression and growth compared to constitutive overexpression of the same pathway. However, this method was not easily adaptable to other non-native substrates. In this study, a variant of Gal3p called Gal3pMC was constructed, which can activate the GAL regulon with diverse substrates and mimic the dynamics of the native system. Testing this regulon approach with non-native lignocellulosic sugars resulted in higher growth rates and final cell densities compared to constitutive overexpression. The co-utilization of multiple non-native substrates suggests that this regulon approach could be universally beneficial for engineering synthetic heterotrophy.
METABOLIC ENGINEERING
(2023)
Review
Biochemistry & Molecular Biology
Dongsoo Yang, Hyunmin Eun, Cindy Pricilia Surya Prabowo
Summary: Polyketides, a type of natural products, have versatile applications such as pharmaceuticals, nutraceuticals, and cosmetics. Aromatic polyketides, including type II and III polyketides, are important chemicals for human health, such as antibiotics and anticancer agents. However, they are mainly produced from challenging sources like soil bacteria or plants. To address this issue, metabolic engineering and synthetic biology have been used to efficiently engineer model microorganisms for enhanced production of aromatic polyketides. This review discusses the recent advancements and future prospects of metabolic engineering and synthetic biology strategies in the production of type II and type III polyketides in model microorganisms.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Review
Biotechnology & Applied Microbiology
Kim-Ngan T. Tran, Ashokkumar Kumaravel, Soon Ho Hong
Summary: Metabolic engineering has become an attractive choice for efficient bio-refinery processes or biochemical production. However, engineered metabolic pathways often suffer from flux imbalances due to a lack of corresponding regulatory mechanisms. Protein scaffolds have been created to co-localize proteins and enhance metabolic productivity.
BIOTECHNOLOGY AND BIOPROCESS ENGINEERING
(2023)
Review
Biotechnology & Applied Microbiology
Hui Zhang, Yao Xiong, Wenhai Xiao, Yi Wu
Summary: Synthetic genomes are designed based on natural genomic information, allowing for the engineering and investigation of biological systems on a genome-wide scale. Many fundamental questions about genome biology have been explored through the design, construction, testing, and engineering of synthetic genomes, including the M. mycoides, S. cerevisiae, and E. coli genomes. This review summarizes the use of synthetic genome engineering to explore genome structure and function and highlights the unique value of synthetic genomics.
BIOENGINEERING-BASEL
(2023)
Article
Biochemical Research Methods
Yisha Luo, Joshua S. James, Sally Jones, Andrea Martella, Yizhi Cai
Summary: Computational design tools are crucial in synthetic biology, especially in the modular design of DNA expression circuits. EMMA-CAD is a powerful web-based computer-aided design tool that allows rapid design of bespoke mammalian expression vectors.
ACS SYNTHETIC BIOLOGY
(2022)
Review
Biotechnology & Applied Microbiology
Govinda R. Navale, Mahesh S. Dharne, Sandip S. Shinde
Summary: Isoprenoids, also known as terpenoids, are diverse organic compounds found abundantly in nature, with various applications in pharmaceutical, nutraceutical, and chemical industries. Recent advancements in metabolic engineering have enabled the production of isoprenoids in heterologous host systems like Escherichia coli and Saccharomyces cerevisiae. Challenges and strategies for scale-up and engineering of isoprenoids in heterologous host systems have been discussed in detail.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2021)
Article
Biochemical Research Methods
Joshua S. James, Sally Jones, Andrea Martella, Yisha Luo, David Fisher, Yizhi Cai
Summary: This paper presents an automated workflow for the library-scale design, assembly, and verification of mammalian expression vectors using the Extensible Mammalian Modular Assembly (EMMA) toolkit. The workflow utilizes the EMMA-CAD tool for vector design and acoustic droplet ejection technology for vector assembly, resulting in significant reductions in reagent usage and researcher hands-on time compared to manual assembly. The performance of the automated EMMA system is demonstrated through the compilation of a library of 48 plasmid vectors encoding CRISPR interference or activation modalities. The system shows high assembly efficiency across vectors of various sizes and design complexities, outperforming manual assembly benchmarks. Alongside the automated pipeline, a strategy for integrating gRNA and Cas modules into the EMMA platform is presented for the design and manufacture of valuable genome editing resources.
ACS SYNTHETIC BIOLOGY
(2022)
Review
Biotechnology & Applied Microbiology
Maria Martin-Pascual, Christos Batianis, Lyon Bruinsma, Enrique Asin-Garcia, Luis Garcia-Morales, Ruud A. Weusthuis, Richard van Kranenburg, Vitor A. P. Martins dos Santos
Summary: Pseudomonas putida is a microbial chassis with great potential for industrial and environmental biotechnology, but the lack of standardization and convergence in tools and methods has led to compartmentalization and inefficient use of resources in biotechnological applications.
BIOTECHNOLOGY ADVANCES
(2021)
Article
Biotechnology & Applied Microbiology
Junqi Zhang, Zheng Chen, Changjiang Liu, Jianxun Li, Xingjuan An, Deguang Wu, Xi Sun, Baocai Zhang, Longping Fu, Feng Li, Hao Song
Summary: The study successfully engineered S. oneidensis strains that could utilize acetate as the sole electron donor for electricity production in MFCs, resulting in significantly improved Coulombic efficiency and bio-catalytic capacity.
FRONTIERS IN BIOENGINEERING AND BIOTECHNOLOGY
(2021)
Review
Environmental Sciences
P. R. Yaashikaa, M. Keerthana Devi, P. senthil Kumar
Summary: Anthropogenic activities have led to the deposition of pollutants in ecosystems, prompting the development of technology to degrade them. Microorganisms play a crucial role in this degrading process, with genetic engineering and molecular biology enhancing their efficiency in degrading pollutants.
ENVIRONMENTAL RESEARCH
(2022)
